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Sema3d
Gene Detail
 Symbol
Name
ID
Sema3d
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D
MGI:1860118
Synonyms 4631426B19Rik
Feature Type protein coding gene
Genetic Map
Chromosome 5
3.97 cM, cytoband A2
Detailed Genetic Map ± 1 cM


Mapping data(4)
Sequence Map
Chr5:12383166-12588943 bp, + strand
From NCBI annotation of GRCm38

  205778 bp   ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer


Mouse Genome Browser
Vertebrate
homology
HomoloGene:23664  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken; 1 zebrafish

Protein SuperFamily: semaphorin
Gene Tree: Sema3d

Human
homologs
Human Homolog SEMA3D, sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D
NCBI Gene ID 223117
neXtProt AC  NX_O95025
Human Synonyms  coll-2, Sema-Z2
Human Chr (Location)  7q21.11; chr7:84995553-85121931 (-)  GRCh38
Alleles
and
phenotypes
All alleles(4) : Targeted(4)
 
Mice homozygous for a knock-out allele exhibit pulmonary vein connection to the right atrium and atrial septal defect.
 
Gene Ontology
(GO)
classifications
All GO classifications: (7 annotations)
Process cell differentiation, multicellular organismal development, ...
Component extracellular region, membrane
Function receptor activity
External Resources: FuncBase
Expression
Literature Summary: (14 records)
Data Summary: Results (166)    Tissues (30)    Images (23)
Theiler Stages: 20, 21, 22, 23
Assay TypeResults
RNA in situ 166
cDNA source data(34)
External Resources: Allen Institute   GEO   ArrayExpress
Molecular
reagents
All nucleic(35) cDNA(34) Primer pair(1)
Microarray probesets(4)
Other database
links
Ensembl Gene ModelENSMUSG00000040254 (Evidence)
Entrez Gene108151 (Evidence)
UniGene89313
DFCITC1581670, TC1593838, TC1599127, TC1641388
DoTSDT.110648143, DT.40153683, DT.40180653, DT.91290089, DT.91327830, DT.94189489, DT.97394214
NIA Mouse Gene IndexU005291
Consensus CDS ProjectCCDS39013.1
International Mouse Knockout Project StatusSema3d
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic 108151 NCBI Gene Model | MGI Sequence Detail 205778 C57BL/6J ±  kb
transcript NM_028882 RefSeq | MGI Sequence Detail 6521 C57BL/6 
polypeptide Q8BH34 UniProt | EBI | MGI Sequence Detail 777 Not Applicable 

For the selected sequences
All sequences(39) RefSeq(4) UniProt(4)
Polymorphisms SNPs within 2kb(1772 from dbSNP Build 137)
Protein-related
information
ResourceIDDescription
InterPro IPR007110 Immunoglobulin-like domain
InterPro IPR013783 Immunoglobulin-like fold
InterPro IPR003599 Immunoglobulin subtype
InterPro IPR013106 Immunoglobulin V-set
InterPro IPR016201 Plexin-like fold
InterPro IPR027231 Semaphorin
InterPro IPR001627 Semaphorin/CD100 antigen
InterPro IPR015943 WD40/YVTN repeat-like-containing domain
Protein Ontology PR:000014618 semaphorin-3D
Graphical View of Protein Domain Structure
References (Earliest) J:62530 Tarantino LM, et al., A high-resolution radiation hybrid map of the proximal portion of mouse chromosome 5. Genomics. 2000 May 15;66(1):55-64
(Latest) J:198676 Degenhardt K, et al., Semaphorin 3d signaling defects are associated with anomalous pulmonary venous connections. Nat Med. 2013 Jun;19(6):760-5
All references(44)
Other
accession IDs
MGI:1921595

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
Citing These Resources
Funding Information
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last database update
04/08/2014
MGI 5.17
The Jackson Laboratory